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DH-Pahang is a doubled-haploid of the germplasm collection accession named Pahang (2n=22). Pahang was collected in Malaysia’s Pahang province in the late 1940s. It is a wild accession that belongs to subspecies Musa acuminata ssp. malaccensis, whose genetic signature is commonly found in dessert and cooking bananas.

DH stands for Doubled Haploid which refers to the induced doubling of the chromosomes in a haploid cell (which has one set of chromosomes). In this case, the haploid cell was pollen. The doubled-haploid (DH Pahang) was produced through anther culture and spontaneous chromosomes doubling.

The Musa acuminata reference genome sequence results from collaboration between Genoscope and CIRAD (UMR AGAP) funded by ANR. The sequence was analyzed in collaboration with several teams within the Global Musa Genomics Consortium (GMGC) and was published as version 1 in:

The reference sequence was then improved by a combination of methods and datasets, leading the release of the version 2 of the assembly and gene annotation, which are described in the following publication:

3. Anchoring the assembly on a genetic map

180 individuals were derived from "Musa acuminata 'Pahang' self-fertilization and used to build the genetic map.

Anchoring the assembly to the linkage groups

652 markers were used for the anchoring (589 SSRs + 63 DArt)
70% of the assembly (332 Mb) was anchored to the 11 Musa chromosomes of the Pahang genetic map including 91.8 % of the predicted genes.

4. Genome Size / Loci

The cumulative scaffold size was 472.9 Mb, about 10% smaller than the estimated genome size of 523 Mb.
Gene models were predicted in the Musa genome, based on a combination of evidence integrated using the GAZE computational framework.
36,538 protein-coding loci have been predicted.

3. Anchoring the assembly on a genetic map

Construction of a genetic map

268 individuals were derived from "Musa acuminata 'Pahang' self-fertilization and used to build the genetic map.

Anchoring the assembly to the linkage groups

23,430 markers were used for the anchoring (609 SSRs + 75 DArt, 20,919 DArtSeq)89.5% of the assembly (397 Mb) was anchored to the 11 Musa chromosomes of the Pahang genetic map including 91.8 % of the predicted genes.

4. Genome Size / Loci

The cumulative scaffold size was 450.8 Mb, about 13.8 % smaller than the estimated genome size of 523 Mb.
Gene models were predicted in the Musa genome, based on a combination of evidence integrated using the GAZE computational framework.
36,538 protein-coding loci have been predicted.

Chromosome

Sequence length(bp)

Protein Coding loci

chr1

29,070,452

2.834

chr2

29,511,734

2.327

chr3

35,020,413

3.253

chr4

37,105,743

3.367

chr5

41,853,232

2.974

chr6

37,593,364

3.700

chr7

35,028,021

2.766

chr8

44,889,171

3.454

chr9

41,306,725

3.105

chr10

37,674,811

3.157

chr11

27,954,350

2.678

chrUn_random

46,622,217

2.927

mitochondrion

7,218,240

??

Total

450,848,473

36.542

Table 3. Genome Statistics.

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